| Back to Workflows build report for BioC 3.22 |
This page was generated on 2025-09-23 16:30 -0400 (Tue, 23 Sep 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | 4.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" | 4817 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" | 4605 |
| Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X | ||||
| Package 16/29 | Hostname | OS / Arch | INSTALL | BUILD | ||||||||
| maEndToEnd 2.29.0 (landing page) Stefanie Reisenauer
| nebbiolo2 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | ||||||||
| lconway | macOS 12.7.1 Monterey / x86_64 | OK | ERROR | |||||||||
|
To the developers/maintainers of the maEndToEnd package: - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
| Package: maEndToEnd |
| Version: 2.29.0 |
| Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data maEndToEnd |
| StartedAt: 2025-09-23 13:06:01 -0400 (Tue, 23 Sep 2025) |
| EndedAt: 2025-09-23 13:07:30 -0400 (Tue, 23 Sep 2025) |
| EllapsedTime: 89.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data maEndToEnd
###
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* checking for file ‘maEndToEnd/DESCRIPTION’ ... OK
* preparing ‘maEndToEnd’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘MA-Workflow.Rmd’ using rmarkdown
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/164_I_.CEL'
Content type 'unknown' length 11127291 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/164_II.CEL'
Content type 'unknown' length 11140543 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/2424_B.CEL'
Content type 'unknown' length 11152051 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/2853_I.CEL'
Content type 'unknown' length 11139691 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/2978_I.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/2987_II.CEL'
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/3258_I.CEL'
Content type 'unknown' length 11162219 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/3262_II.CEL'
Content type 'unknown' length 11167211 bytes (10.6 MB)
==================================================
trying URL 'ftp://ftp.ebi.ac.uk/biostudies/fire/E-MTAB-/967/E-MTAB-2967/Files/848_B.CEL'
trying URL 'https://www.ebi.ac.uk/biostudies/files/E-MTAB-2967/E-MTAB-2967.sdrf.txt'
Content type 'text/plain; charset=UTF-8' length 22516 bytes (21 KB)
==================================================
downloaded 21 KB
Quitting from MA-Workflow.Rmd:367-372 [importCelfiles]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! These do not exist:
/home/biocbuild/.cache/R/maEndToEnd/2978_I.CEL
/home/biocbuild/.cache/R/maEndToEnd/2987_II.CEL
/home/biocbuild/.cache/R/maEndToEnd/848_B.CEL
---
Backtrace:
▆
1. └─oligo::read.celfiles(...)
2. └─oligo:::checkValidFilenames(filenames)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'MA-Workflow.Rmd' failed with diagnostics:
These do not exist:
/home/biocbuild/.cache/R/maEndToEnd/2978_I.CEL
/home/biocbuild/.cache/R/maEndToEnd/2987_II.CEL
/home/biocbuild/.cache/R/maEndToEnd/848_B.CEL
--- failed re-building ‘MA-Workflow.Rmd’
SUMMARY: processing the following file failed:
‘MA-Workflow.Rmd’
Error: Vignette re-building failed.
Execution halted